SBC logo Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden.

NucPred

Fetching O75970 from www.uniprot.org...

The NucPred score for your sequence is 0.46 (see score help below)

   1  MLEAIDKNRALHAAERLQTKLRERGDVANEDKLSLLKSVLQSPLFSQILS    50
  51  LQTSVQQLKDQVNIATSATSNIEYAHVPHLSPAVIPTLQNESFLLSPNNG   100
 101  NLEALTGPGIPHINGKPACDEFDQLIKNMAQGRHVEVFELLKPPSGGLGF   150
 151  SVVGLRSENRGELGIFVQEIQEGSVAHRDGRLKETDQILAINGQALDQTI   200
 201  THQQAISILQKAKDTVQLVIARGSLPQLVSPIVSRSPSAASTISAHSNPV   250
 251  HWQHMETIELVNDGSGLGFGIIGGKATGVIVKTILPGGVADQHGRLCSGD   300
 301  HILKIGDTDLAGMSSEQVAQVLRQCGNRVKLMIARGAIEERTAPTALGIT   350
 351  LSSSPTSTPELRVDASTQKGEESETFDVELTKNVQGLGITIAGYIGDKKL   400
 401  EPSGIFVKSITKSSAVEHDGRIQIGDQIIAVDGTNLQGFTNQQAVEVLRH   450
 451  TGQTVLLTLMRRGMKQEAELMSREDVTKDADLSPVNASIIKENYEKDEDF   500
 501  LSSTRNTNILPTEEEGYPLLSAEIEEIEDAQKQEAALLTKWQRIMGINYE   550
 551  IVVAHVSKFSENSGLGISLEATVGHHFIRSVLPEGPVGHSGKLFSGDELL   600
 601  EVNGITLLGENHQDVVNILKELPIEVTMVCCRRTVPPTTQSELDSLDLCD   650
 651  IELTEKPHVDLGEFIGSSETEDPVLAMTDAGQSTEEVQAPLAMWEAGIQH   700
 701  IELEKGSKGLGFSILDYQDPIDPASTVIIIRSLVPGGIAEKDGRLLPGDR   750
 751  LMFVNDVNLENSSLEEAVEALKGAPSGTVRIGVAKPLPLSPEEGYVSAKE   800
 801  DSFLYPPHSCEEAGLADKPLFRADLALVGTNDADLVDESTFESPYSPEND   850
 851  SIYSTQASILSLHGSSCGDGLNYGSSLPSSPPKDVIENSCDPVLDLHMSL   900
 901  EELYTQNLLQRQDENTPSVDISMGPASGFTINDYTPANAIEQQYECENTI   950
 951  VWTESHLPSEVISSAELPSVLPDSAGKGSEYLLEQSSLACNAECVMLQNV  1000
1001  SKESFERTINIAKGNSSLGMTVSANKDGLGMIVRSIIHGGAISRDGRIAI  1050
1051  GDCILSINEESTISVTNAQARAMLRRHSLIGPDIKITYVPAEHLEEFKIS  1100
1101  LGQQSGRVMALDIFSSYTGRDIPELPEREEGEGEESELQNTAYSNWNQPR  1150
1151  RVELWREPSKSLGISIVGGRGMGSRLSNGEVMRGIFIKHVLEDSPAGKNG  1200
1201  TLKPGDRIVEVDGMDLRDASHEQAVEAIRKAGNPVVFMVQSIINRPRKSP  1250
1251  LPSLLHNLYPKYNFSSTNPFADSLQINADKAPSQSESEPEKAPLCSVPPP  1300
1301  PPSAFAEMGSDHTQSSASKISQDVDKEDEFGYSWKNIRERYGTLTGELHM  1350
1351  IELEKGHSGLGLSLAGNKDRSRMSVFIVGIDPNGAAGKDGRLQIADELLE  1400
1401  INGQILYGRSHQNASSIIKCAPSKVKIIFIRNKDAVNQMAVCPGNAVEPL  1450
1451  PSNSENLQNKETEPTVTTSDAAVDLSSFKNVQHLELPKDQGGLGIAISEE  1500
1501  DTLSGVIIKSLTEHGVAATDGRLKVGDQILAVDDEIVVGYPIEKFISLLK  1550
1551  TAKMTVKLTIHAENPDSQAVPSAAGAASGEKKNSSQSLMVPQSGSPEPES  1600
1601  IRNTSRSSTPAIFASDPATCPIIPGCETTIEISKGRTGLGLSIVGGSDTL  1650
1651  LGAIIIHEVYEEGAACKDGRLWAGDQILEVNGIDLRKATHDEAINVLRQT  1700
1701  PQRVRLTLYRDEAPYKEEEVCDTLTIELQKKPGKGLGLSIVGKRNDTGVF  1750
1751  VSDIVKGGIADADGRLMQGDQILMVNGEDVRNATQEAVAALLKCSLGTVT  1800
1801  LEVGRIKAGPFHSERRPSQSSQVSEGSLSSFTFPLSGSSTSESLESSSKK  1850
1851  NALASEIQGLRTVEMKKGPTDSLGISIAGGVGSPLGDVPIFIAMMHPTGV  1900
1901  AAQTQKLRVGDRIVTICGTSTEGMTHTQAVNLLKNASGSIEMQVVAGGDV  1950
1951  SVVTGHQQEPASSSLSFTGLTSSSIFQDDLGPPQCKSITLERGPDGLGFS  2000
2001  IVGGYGSPHGDLPIYVKTVFAKGAASEDGRLKRGDQIIAVNGQSLEGVTH  2050
2051  EEAVAILKRTKGTVTLMVLS                                2070

Positively and negatively influencing subsequences are coloured according to the following scale:

(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)

with NucPred



If you find NucPred useful, please cite this paper:
NucPred - Predicting Nuclear Localization of Proteins. Brameier M, Krings A, Maccallum RM. Bioinformatics, 2007. PubMed id: 17332022
The authors also look forward to your comments and suggestions.

What does the NucPred score mean?

You have to decide on a NucPred score threshold. Sequences which score greater than or equal to this threshold are predicted to spend some time in the nucleus. Higher thresholds yield fewer predicted nuclear proteins, but these predictions are more accurate (you can have higher confidence in them). The table below gives more details of the performance of NucPred estimated using the sequences it was trained on (by cross-validation). Another benchmark is available in the Bioinformatics 2007 paper.

NucPred score threshold Specificity Sensitivity
see above fraction of proteins predicted to be nuclear that actually are nuclear fraction of true nuclear proteins that are predicted (coverage)
0.10 0.45 0.88
0.20 0.52 0.83
0.30 0.57 0.77
0.40 0.63 0.69
0.50 0.70 0.62
0.60 0.71 0.53
0.70 0.81 0.44
0.80 0.84 0.32
0.90 0.88 0.21
1.00 1.00 0.02

Sequences which score >= 0.8 with NucPred and which are predicted by PredictNLS to contain an NLS have been shown to be 93% correct with a coverage of 16%. (PredictNLS by itself is 87% correct with 26% coverage on the same data.)

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